BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= gi|15644864|ref|NP_207034.1| hypothetical protein
[Helicobacter pylori 26695]
(123 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1DCT|A Chain A, Dna (Cytosine-5) Methylase From Haeiii ... 27 0.87
pdb|1KB2|A Chain A, Crystal Structure Of Vdr Dna-Binding Do... 26 1.5
pdb|1FT5|A Chain A, Crystal Structure Of The Oxidized State... 24 5.7
pdb|1H72|C Chain C, Crystal Structure Of Homoserine Kinase ... 23 9.6
pdb|3PVI|A Chain A, D34g Mutant Of Pvuii Endonuclease Compl... 23 9.6
pdb|1I7E|A Chain A, C-Terminal Domain Of Mouse Brain Tubby ... 23 9.6
pdb|1PVI|A Chain A, Pvuii Endonuclease Complexed With Cogna... 23 9.6
pdb|1C8Z|A Chain A, C-Terminal Domain Of Mouse Brain Tubby ... 23 9.6
pdb|1CNO|G Chain G, Structure Of Pseudomonas Nautica Cytoch... 23 9.6
pdb|1PVU|A Chain A, Pvuii Restriction Endonuclease (E.C.3.1... 23 9.6
pdb|2PVI|A Chain A, Pvuii Endonuclease Complexed To An Iodi... 23 9.6
>pdb|1DCT|A Chain A, Dna (Cytosine-5) Methylase From Haeiii Covalently Bound To
Dna
pdb|1DCT|B Chain B, Dna (Cytosine-5) Methylase From Haeiii Covalently Bound To
Dna
Length = 324
Score = 26.6 bits (57), Expect = 0.87
Identities = 13/42 (30%), Positives = 22/42 (51%)
Query: 43 AKCHGIKGEQQEITFYYEKGEKKILYAPKINHLDFKTFKDAL 84
A +G+ +++ + + + E I Y P I HL TFKD +
Sbjct: 144 ANDYGVAQDRKRVFYIGFRKELNINYLPPIPHLIKPTFKDVI 185
>pdb|1KB2|A Chain A, Crystal Structure Of Vdr Dna-Binding Domain Bound To Mouse
Osteopontin (Spp) Response Element
pdb|1KB2|B Chain B, Crystal Structure Of Vdr Dna-Binding Domain Bound To Mouse
Osteopontin (Spp) Response Element
pdb|1KB4|A Chain A, Crystal Structure Of Vdr Dna-Binding Domain Bound To A
Canonical Direct Repeat With Three Base Pair Spacer
(Dr3) Response Element
pdb|1KB4|B Chain B, Crystal Structure Of Vdr Dna-Binding Domain Bound To A
Canonical Direct Repeat With Three Base Pair Spacer
(Dr3) Response Element
pdb|1KB6|A Chain A, Crystal Structure Of Vdr Dna-Binding Domain Bound To Rat
Osteocalcin (Oc) Response Element
pdb|1KB6|B Chain B, Crystal Structure Of Vdr Dna-Binding Domain Bound To Rat
Osteocalcin (Oc) Response Element
Length = 110
Score = 25.8 bits (55), Expect = 1.5
Identities = 26/89 (29%), Positives = 39/89 (43%), Gaps = 17/89 (19%)
Query: 45 CHGIKGEQQEITFYYEKGEKKILYAPKINHLDFKTFKD------ALSLGK----GMMPKY 94
C G KG F+ ++K L+ N D + KD A L + GMM ++
Sbjct: 26 CEGCKG------FFRRSMKRKALFTCPFNG-DCRITKDNRRHCQACRLKRCVDIGMMKEF 78
Query: 95 NLNLEEIQAIYLYIISLEHKEERKDSPKP 123
L EE+Q I+ + +E KDS +P
Sbjct: 79 ILTDEEVQRKREMILKRKEEEALKDSLRP 107
>pdb|1FT5|A Chain A, Crystal Structure Of The Oxidized State Of Cytochrome C554
From Nitrosomonas Europaea
pdb|1BVB| Heme-Packing Motifs Revealed By The Crystal Structure Of
Cytochrome C554 From Nitrosomonas Europaea
pdb|1FT6|A Chain A, Reduced State Of Cytochrome C554 From Nitrosomonas
Europaea
Length = 211
Score = 23.9 bits (50), Expect = 5.7
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 4/31 (12%)
Query: 39 GVACAKCHG----IKGEQQEITFYYEKGEKK 65
GV C CHG +G+ ++ +EK KK
Sbjct: 85 GVGCESCHGPGRNFRGDHRKSGQAFEKSGKK 115
>pdb|1H72|C Chain C, Crystal Structure Of Homoserine Kinase Complexed With Hse
pdb|1H74|A Chain A, Crystal Structure Of Homoserine Kinase Complexed With Ile
pdb|1H74|B Chain B, Crystal Structure Of Homoserine Kinase Complexed With Ile
pdb|1H74|C Chain C, Crystal Structure Of Homoserine Kinase Complexed With Ile
pdb|1H74|D Chain D, Crystal Structure Of Homoserine Kinase Complexed With Ile
pdb|1H73|A Chain A, Crystal Structure Of Homoserine Kinase Complexed With
Threonine
pdb|1FWK|A Chain A, Crystal Structure Of Homoserine Kinase Complexed With Adp
pdb|1FWK|B Chain B, Crystal Structure Of Homoserine Kinase Complexed With Adp
pdb|1FWK|C Chain C, Crystal Structure Of Homoserine Kinase Complexed With Adp
pdb|1FWK|D Chain D, Crystal Structure Of Homoserine Kinase Complexed With Adp
pdb|1FWL|A Chain A, Crystal Structure Of Homoserine Kinase
pdb|1FWL|B Chain B, Crystal Structure Of Homoserine Kinase
pdb|1FWL|C Chain C, Crystal Structure Of Homoserine Kinase
pdb|1FWL|D Chain D, Crystal Structure Of Homoserine Kinase
Length = 296
Score = 23.1 bits (48), Expect = 9.6
Identities = 14/53 (26%), Positives = 23/53 (42%)
Query: 14 LSLNAKEADFISDLEYGMALYKNPRGVACAKCHGIKGEQQEITFYYEKGEKKI 66
+S+N KEA I G+ N G AC + + + + + Y +K I
Sbjct: 175 ISINTKEAREILPKAVGLKDLVNNVGKACGMVYALYNKDKSLFGRYMMSDKVI 227
>pdb|3PVI|A Chain A, D34g Mutant Of Pvuii Endonuclease Complexed With Cognate
Dna Shows That Asp34 Is Directly Involved In Dna
Recognition And Indirectly Involved In Catalysis
pdb|3PVI|B Chain B, D34g Mutant Of Pvuii Endonuclease Complexed With Cognate
Dna Shows That Asp34 Is Directly Involved In Dna
Recognition And Indirectly Involved In Catalysis
Length = 157
Score = 23.1 bits (48), Expect = 9.6
Identities = 10/28 (35%), Positives = 18/28 (63%), Gaps = 2/28 (7%)
Query: 38 RGVACAKCHGIKGEQQEITFYYEKGEKK 65
RG+A + + E +++ FYY+K E+K
Sbjct: 105 RGIAIEAIYRL--EPKDLEFYYDKWERK 130
>pdb|1I7E|A Chain A, C-Terminal Domain Of Mouse Brain Tubby Protein Bound To
Phosphatidylinositol 4,5-Bis-Phosphate
Length = 265
Score = 23.1 bits (48), Expect = 9.6
Identities = 11/52 (21%), Positives = 27/52 (51%)
Query: 69 APKINHLDFKTFKDALSLGKGMMPKYNLNLEEIQAIYLYIISLEHKEERKDS 120
AP+ + + +D + +GM P Y L+L+ +++++ +++ K S
Sbjct: 18 APQGITIKCRITRDKKGMDRGMFPTYFLHLDREDGKKVFLLAGRKRKKSKTS 69
>pdb|1PVI|A Chain A, Pvuii Endonuclease Complexed With Cognate Dna
pdb|1PVI|B Chain B, Pvuii Endonuclease Complexed With Cognate Dna
pdb|1EYU|A Chain A, High Resolution Structure Of The Pvuii EndonculeaseCOGNATE
Dna Complex At Ph 4.6
pdb|1EYU|B Chain B, High Resolution Structure Of The Pvuii EndonculeaseCOGNATE
Dna Complex At Ph 4.6
pdb|1F0O|A Chain A, Pvuii EndonucleaseCOGNATE DNA COMPLEX (GLUTARALDEHYDE-
Crosslinked Crystal) At Ph 7.5 With Two Calcium Ions At
Each Active Site
pdb|1F0O|B Chain B, Pvuii EndonucleaseCOGNATE DNA COMPLEX (GLUTARALDEHYDE-
Crosslinked Crystal) At Ph 7.5 With Two Calcium Ions At
Each Active Site
Length = 157
Score = 23.1 bits (48), Expect = 9.6
Identities = 10/28 (35%), Positives = 18/28 (63%), Gaps = 2/28 (7%)
Query: 38 RGVACAKCHGIKGEQQEITFYYEKGEKK 65
RG+A + + E +++ FYY+K E+K
Sbjct: 105 RGIAIEAIYRL--EPKDLEFYYDKWERK 130
>pdb|1C8Z|A Chain A, C-Terminal Domain Of Mouse Brain Tubby Protein
Length = 265
Score = 23.1 bits (48), Expect = 9.6
Identities = 11/52 (21%), Positives = 27/52 (51%)
Query: 69 APKINHLDFKTFKDALSLGKGMMPKYNLNLEEIQAIYLYIISLEHKEERKDS 120
AP+ + + +D + +GM P Y L+L+ +++++ +++ K S
Sbjct: 18 APQGITIKCRITRDKKGMDRGMFPTYFLHLDREDGKKVFLLAGRKRKKSKTS 69
>pdb|1CNO|G Chain G, Structure Of Pseudomonas Nautica Cytochrome C552, By Mad
Method
pdb|1CNO|A Chain A, Structure Of Pseudomonas Nautica Cytochrome C552, By Mad
Method
pdb|1CNO|B Chain B, Structure Of Pseudomonas Nautica Cytochrome C552, By Mad
Method
pdb|1CNO|C Chain C, Structure Of Pseudomonas Nautica Cytochrome C552, By Mad
Method
pdb|1CNO|D Chain D, Structure Of Pseudomonas Nautica Cytochrome C552, By Mad
Method
pdb|1CNO|E Chain E, Structure Of Pseudomonas Nautica Cytochrome C552, By Mad
Method
pdb|1CNO|F Chain F, Structure Of Pseudomonas Nautica Cytochrome C552, By Mad
Method
pdb|1CNO|H Chain H, Structure Of Pseudomonas Nautica Cytochrome C552, By Mad
Method
Length = 87
Score = 23.1 bits (48), Expect = 9.6
Identities = 13/40 (32%), Positives = 18/40 (44%), Gaps = 5/40 (12%)
Query: 26 DLEYGMALYKNPRGVACAKCHGIKGEQQEITFYYEKGEKK 65
D+E G A + CA CHG G Q + G+K+
Sbjct: 3 DIEAGKA-----KAAVCAACHGQNGISQVPIYPNLAGQKE 37
>pdb|1PVU|A Chain A, Pvuii Restriction Endonuclease (E.C.3.1.21.4)
pdb|1PVU|B Chain B, Pvuii Restriction Endonuclease (E.C.3.1.21.4)
Length = 154
Score = 23.1 bits (48), Expect = 9.6
Identities = 10/28 (35%), Positives = 18/28 (63%), Gaps = 2/28 (7%)
Query: 38 RGVACAKCHGIKGEQQEITFYYEKGEKK 65
RG+A + + E +++ FYY+K E+K
Sbjct: 102 RGIAIEAIYRL--EPKDLEFYYDKWERK 127
>pdb|2PVI|A Chain A, Pvuii Endonuclease Complexed To An Iodinated Cognate Dna
pdb|2PVI|B Chain B, Pvuii Endonuclease Complexed To An Iodinated Cognate Dna
Length = 157
Score = 23.1 bits (48), Expect = 9.6
Identities = 10/28 (35%), Positives = 18/28 (63%), Gaps = 2/28 (7%)
Query: 38 RGVACAKCHGIKGEQQEITFYYEKGEKK 65
RG+A + + E +++ FYY+K E+K
Sbjct: 105 RGIAIEAIYRL--EPKDLEFYYDKWERK 130
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.321 0.140 0.431
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 722,202
Number of Sequences: 13198
Number of extensions: 28029
Number of successful extensions: 58
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 53
Number of HSP's gapped (non-prelim): 11
length of query: 123
length of database: 2,899,336
effective HSP length: 77
effective length of query: 46
effective length of database: 1,883,090
effective search space: 86622140
effective search space used: 86622140
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)